More information XML output
| Name | miRRim |
|---|---|
| Aliases | None |
| Description | miRRim is a method for detecting miRNA foldbacks based on hidden Markov model (HMM). In this method, the evolutionary and secondary structural features of a miRNA region is represented by a sequence of multidimensional vectors. HMMs that generate a sequence of continuous values are used to model the feature vector sequences.(cited from the original site) |
| Type | Tool |
| Main Institutes of management | Computational Biology Research Center (CBRC), National Institute of Advanced Industrial Science and Technology (AIST) |
| Country of the Institute | Japan |
| URL of the site | http://www.ncrna.org/software/miRRim |
| Interface | CUI (Character User Interface, or Command line) |
| Input example | perl ./miRRim.pl example/chr9_94011601_94111600_+.dat |
| Keyword |
HMMs | miRNA
|
| Amount of the all data for download（Mbyte） | Method to obtain the all data. | 4.2 | Download from the page http://mirrim.ncrna.org/ |
| External resources (databases) in building the product. | None |
| Data type | RNA (miRNA) |
| Biological species in the main concern |
All species
|
| Conditions of use | Under investigation |
| Frequency of updates (in last two years) | 2 |
| Last date of updates (date of confirmation) | 2010/04/23 (2010/05/10) |
| Main IDs used in the products | - |
| How to make a link to get access to each IDs. | None |
| external databases to which this database/tool have links | - |
| Published papers (PubMed IDs) | 17959929 |
| Project name | Functional RNA Project |
|---|---|
| Area | Genome Informatics |
| Purpose | The objective of this project is to establish the leadership of Japan in this research field by developing methods to estimate functional RNAs using bioinformatics as well as supporting techniques and tools for analyzing functional RNAs and analyzing the functions of functional RNAs. Another purpose of the project is to contribute to the creation of new medical/diagnostic business fields through timely utilization of patents based on the results of the project. (cited from the "NEDO:Functional RNA Project" (http://www.nedo.go.jp/english/activities/portal/gaiyou/p06011/p06011.html)) |
| Introduction | Through recent research activities, it has been found that there are many noncoding RNAs (ncRNA) that can undergo transcription although they do not code proteins, unlike conventional RNAs that code proteins, in the cells of higher organisms, including mammals. These noncoding RNAs play an important role as functional RNAs in the processes of development and differentiation of cells. Moreover, it is understood that these RNAs are deeply involved in the development of various diseases, including cancer and diabetes. The objective of this project is to establish the leadership of Japan in this research field by developing methods to estimate functional RNAs using bioinformatics as well as supporting techniques and tools for analyzing functional RNAs and analyzing the functions of functional RNAs. Another purpose of the project is to contribute to the creation of new medical/diagnostic business fields through timely utilization of patents based on the results of the project. (cited from the "NEDO:Functional RNA Project" (http://www.nedo.go.jp/english/activities/portal/gaiyou/p06011/p06011.html)) |
| Keyword | functional RNA | non-coding RNA | Bioinformatics | functional analysis | tool development |
| Patent (Japan, overseas) | Under investigation |
| Archives | |
| Product (Database, Tool) | Nothing |
